-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_44

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Valid prediction for GlimmerHMM_glimmerT_59559-T1

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)Valid prediction for snap_scaffold_44-snap.4-T1
Valid prediction for snap_scaffold_44-snap.2-T1
Valid prediction for snap_scaffold_44-snap.1-T1
Valid prediction for GlimmerHMM_glimmerT_59557-T1
Valid prediction for CodingQuarry_transcript_49453-T1
Valid prediction for CodingQuarry_transcript_49452-T1
Couldn't classify 442, 631
Sorry, prediction GlimmerHMM_glimmerT_59560-T1 fails validation.
(CGT)	 AG	442-631	GT	GGG
(AGC)	 AG	1426-1524	GT	AGG
(AGC)	 AG	3094-3192	GT	AGG
(GGG)	 AG	7259-7383	GT	AGG
(AGT)	 AG	9343-9516	GT	AAG
(ATT)	 AG	10294-10453	GT	AGG
(GTC)	 AG	10653-10745	TC	AAT
-recovered GlimmerHMM_glimmerT_59560-T1, terminal, 10653, 10745
-recovered GlimmerHMM_glimmerT_59560-T1, internal, 442, 631
-recovered GlimmerHMM_glimmerT_59560-T1, internal, 1426, 1524
-recovered GlimmerHMM_glimmerT_59560-T1, internal, 3094, 3192
-recovered GlimmerHMM_glimmerT_59560-T1, internal, 7259, 7383
-recovered GlimmerHMM_glimmerT_59560-T1, internal, 9343, 9516
-recovered GlimmerHMM_glimmerT_59560-T1, internal, 10294, 10453
Couldn't classify 23228, 24193
Sorry, prediction pasa_asmbl_43706.p1 fails validation.
(AGA)	 AA	23228-24193	TA	GAT
Valid prediction for Augustus_model.g39446.t1
Couldn't classify 12876, 13178
Sorry, prediction pasa_asmbl_43708.p1 fails validation.
(CCA)	 AT	12876-13178	CT	GAC
Valid prediction for snap_scaffold_44-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_59558-T1
Couldn't classify 442, 625
Sorry, prediction snap_scaffold_44-snap.5-T1 fails validation.
(CGT)	 AG	442-625	GT	AGG
(AGC)	 AG	1426-1536	CC	AAC
-recovered snap_scaffold_44-snap.5-T1, terminal, 1426, 1536
-recovered snap_scaffold_44-snap.5-T1, internal, 442, 625
Couldn't classify 7256, 7383
Sorry, prediction pasa_asmbl_43709.p1 fails validation.
(CAG)	 TC	7256-7383	GT	AGG
(AGT)	 AG	9343-9516	GT	AAG
(ATT)	 AG	10294-10453	GT	AGG
(GTC)	 AG	10653-10745	TC	AAT
-recovered pasa_asmbl_43709.p1, terminal, 10653, 10745
-recovered pasa_asmbl_43709.p1, internal, 9343, 9516
-recovered pasa_asmbl_43709.p1, internal, 10294, 10453

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 31495
-exon list size: 29


building trellis

3.2    
6.5    
9.7    
12.9    
16.1    
19.4    
22.6    
25.8    
29.0    
32.3    
35.5    
38.7    
41.9    
45.2    
48.4    
51.6    
54.8    
58.1    
61.3    
64.5    
67.7    
71.0    
74.2    
77.4    
80.6    
83.9    
87.1    
90.3    
93.5    
96.8    
-found 3 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support